Variant report

Variant	rs3898642
Chromosome Location	chr1:160476489-160476490
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	KAP1	chr1:160475481-160477561	K562	blood:	n/a	n/a
2	STAT3	chr1:160476440-160476586	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000223009	TF binding region

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10797069	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10797072	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10797076	0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10797077	0.88[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs10797078	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10908782	0.82[AMR][1000 genomes]
rs10908787	0.81[AMR][1000 genomes]
rs10908788	0.81[AMR][1000 genomes]
rs11265418	0.85[AMR][1000 genomes]
rs11265432	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11265433	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11265436	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11265438	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1149381	0.83[EUR][1000 genomes]
rs12128290	0.82[AMR][1000 genomes]
rs1324734	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1466933	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1503856	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1503859	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1503860	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs1553458	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1590450	0.83[EUR][1000 genomes]
rs2050523	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2134705	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2369721	0.81[AMR][1000 genomes]
rs2369723	0.83[EUR][1000 genomes]
rs2438181	0.81[EUR][1000 genomes]
rs349250	0.83[EUR][1000 genomes]
rs349251	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs3737788	0.81[ASN][1000 genomes]
rs3737789	0.85[ASN][1000 genomes]
rs3766390	0.85[ASN][1000 genomes]
rs3845627	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3903887	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3903888	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3904694	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4145896	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4268352	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6413899	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6427521	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6427523	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6427525	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6427528	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs6427530	0.82[CHB][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6659814	0.83[EUR][1000 genomes]
rs6662885	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6668881	0.83[EUR][1000 genomes]
rs6680709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680920	0.83[EUR][1000 genomes]
rs6689237	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6691593	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6696595	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6700440	0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6700764	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs724985	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs7413789	0.83[EUR][1000 genomes]
rs7519809	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7519913	0.81[EUR][1000 genomes]
rs7533828	0.82[AMR][1000 genomes]
rs7535796	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7543788	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs7547372	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7555581	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1829614	chr1:160465291-160595000	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv872491	chr1:160470258-160580549	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160468000-160477000	ZNF genes & repeats	GM12878-XiMat	blood
2	chr1:160473800-160485800	Weak transcription	Thymus	Thymus
3	chr1:160474600-160480000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr1:160475200-160477800	ZNF genes & repeats	Primary B cells from peripheral blood	blood
5	chr1:160475400-160477400	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
6	chr1:160475600-160476600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr1:160475600-160477800	ZNF genes & repeats	Primary B cells from cord blood	blood
8	chr1:160475800-160477800	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
9	chr1:160475800-160477800	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
10	chr1:160476000-160476800	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
11	chr1:160476000-160477000	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--

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